|
| Status |
Public on Apr 20, 2020 |
| Title |
ITGA3_neg_3 |
| Sample type |
SRA |
| |
|
| Source name |
expanded cord blood
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: cord blood cells
cell population: ITGA3-
|
| Growth protocol |
cord blood cells sorted at day 0 for the CD34+CD45RA- phenotype and expanded for 7 days with UM171 (35nM). Cells are sorted for the CD34+CD45RA-CD90+EPCR+CD133+ and either ITGA3+ and ITGA3-. EPCR+CD34+ are sorted as a control.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
TriZol + RNeasy mini Kit (Qiagen, #74106)
TruSeq RNA Stranded Sample Preparation (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
EXP119_ITGA3_n_F (16)
ITGA3- (EPCR+CD90+CD133+CD34+CD45RA-) cells sorted from sample F after 7 day culture in UM171
|
| Data processing |
Basecalls performed using Illumina RTA 1.18.64
Samples demultiplexed using bcl2fastq 2.17
TPM values were computed by kallisto using a transcriptome index built on human genome GRCh38 along with Ensembl 92 annotations and taking into account fragment orientation for these stranded libraries.
Genome_build: GRCh38
Supplementary_files_format_and_content: Expression files are tab delimited with columns 1) Ensembl transcript identifier, 2) transcript length , 3) effective transcript length, 4) estimated counts, and 5) transcript per million reads sequenced (TPM).
|
| |
|
| Submission date |
May 09, 2019 |
| Last update date |
Apr 22, 2020 |
| Contact name |
Guy Sauvageau |
| Organization name |
Institute for Research in Immunology and Cancer
|
| Street address |
2950, Chemin de Polytechnique
|
| City |
Montreal |
| State/province |
QC |
| ZIP/Postal code |
H3T 1J4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE130974 |
Transcriptome analysis of ITGA3+ and ITGA3- from expanded CB cells |
|
| Relations |
| BioSample |
SAMN11613242 |
| SRA |
SRX5813554 |
